The electronic structure calculations, to compute the energies, geometry
optimizations and frequencies of the molecules and hydrated iron complexes
in vacuo, were performed at the DFT level of theory (see e.g. ref. DFT), as implemented in the Amsterdam Density Functional package
ADF[70]. We used the Becke-88 gradient corrected exchange
functional[67] and the Perdew-86 gradient corrected correlation
functional[38]. The Kohn-Sham orbitals were expanded in a large
even-tempered all-electron Slater-type basis set containing: 4 , 2
, and 1
functions for hydrogen; 6
, 4
, 2
, and 1
functions for oxygen;
and 11
, 7
, 5
, and 1
functions for iron[175].
The ab initio (DFT) molecular dynamics calculations of the systems
including the solvent environment were done with the Car-Parrinello (CP)
method[49] as implemented in the CP-PAW code developed by Blöchl[24].
The one-electron valence wave functions were expanded in an
augmented plane wave basis up to a kinetic energy cutoff of 30 Ry.
The frozen core approximation was applied for the 1
electrons of O,
and up to 3
for Fe. For the augmentation for H and O, one
projector function per angular-momentum quantum number was used for
- and
-angular momenta. For Fe, one projector function was
used for
and
and two for
-angular momenta.
The characteristic feature
of the Car-Parrinello approach is that the electronic wave function,
i.e. the coefficients of the plane wave basis set expansion,
are dynamically optimized to be consistent with the changing
positions of the atomic nuclei. The mass for the wave function coefficient
dynamics was
=1000 a.u., which limits the MD time step
to
fs. To maintain a constant temperature of
K a
Nosé thermostat [69] was applied with a period of 100
femto-second. Periodic boundary conditions were applied to the cubic
systems containing one iron ion, one hydrogen peroxide molecule and
31 water molecules. The size of the cubic box was 9.900 Å.
The positive charge of the systems was compensated
by a uniformly distributed counter charge.